NP-MRD: Showing NP-Card for copaene (NP0204262)

Jump To Section:

Identification Spectra BioTaxonomy ChemoTaxonomy Physical properties Links References XML

Record Information

Version

2.0

Created at

2022-09-04 23:54:19 UTC

Updated at

2022-09-04 23:54:19 UTC

NP-MRD ID

NP0204262

Secondary Accession Numbers

None

Natural Product Identification

Common Name

copaene

Description

Copaene belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units. copaene is found in Pinus heldreichii, Pinus pinaster, Pinus sylvestris, Piper aduncum and Valeriana officinalis. copaene was first documented in 2019 (PMID: 31892247). Copaene is possibly neutral (PMID: 32103562) (PMID: 32220814) (PMID: 31874099) (PMID: 31855770).

Structure

MOL 3D MOL SDF PDB SMILES InChI

     RDKit          3D

 39 41  0  0  0  0  0  0  0  0999 V2000
   -1.3788    0.9227    3.1754 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.4391    0.6898    1.7317 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3119    1.3033    0.9588 C   0  0  0  0  0  0  0  0  0  0  0  0
   -2.3455    0.9657   -0.5141 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1914    0.0812   -0.8592 C   0  0  1  0  0  0  0  0  0  0  0  0
    0.0708    0.4973   -0.1353 C   0  0  2  0  0  0  0  0  0  0  0  0
    1.2828   -0.2583   -0.5512 C   0  0  2  0  0  0  0  0  0  0  0  0
    2.1962    0.6333   -1.3326 C   0  0  0  0  0  0  0  0  0  0  0  0
    3.5036   -0.0068   -1.6999 C   0  0  0  0  0  0  0  0  0  0  0  0
    2.5188    1.8426   -0.4634 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.8915   -1.5129   -1.2458 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.2265   -2.1584   -0.4141 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.1987   -1.1321    0.0623 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.5651   -1.6060    0.4078 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.5059   -0.2586    1.0812 C   0  0  2  0  0  0  0  0  0  0  0  0
   -0.3972    0.7042    3.6330 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.1181    0.2816    3.7235 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.6286    1.9677    3.4689 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.9816    2.0298    1.3870 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.3346    0.5326   -0.7076 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.2987    1.9390   -1.0348 H   0  0  0  0  0  0  0  0  0  0  0  0
   -1.0792   -0.1622   -1.9170 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.1543    1.5732    0.0022 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.8406   -0.5535    0.3847 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7085    0.9909   -2.2600 H   0  0  0  0  0  0  0  0  0  0  0  0
    4.3744    0.4516   -1.1604 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.7279    0.1132   -2.7827 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5189   -1.0895   -1.4027 H   0  0  0  0  0  0  0  0  0  0  0  0
    2.5074    1.4940    0.5833 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7908    2.6476   -0.5714 H   0  0  0  0  0  0  0  0  0  0  0  0
    3.5463    2.2225   -0.6750 H   0  0  0  0  0  0  0  0  0  0  0  0
    1.7202   -2.2682   -1.2349 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.5634   -1.3563   -2.2837 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.3039   -2.5558    0.5004 H   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6676   -3.0085   -0.9381 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.0137   -1.0444    1.2198 H   0  0  0  0  0  0  0  0  0  0  0  0
   -2.5757   -2.6854    0.6527 H   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2060   -1.4923   -0.5002 H   0  0  0  0  0  0  0  0  0  0  0  0
    0.2438   -0.7347    1.7116 H   0  0  0  0  0  0  0  0  0  0  0  0
  9  8  1  0
  8 10  1  0
  8  7  1  0
  7 11  1  0
 11 12  1  0
 12 13  1  0
 13 14  1  1
 13  5  1  0
  5  4  1  0
  4  3  1  0
  3  2  2  0
  2  1  1  0
  2 15  1  0
 15  6  1  0
  6  7  1  0
 15 13  1  0
  6  5  1  0
  9 26  1  0
  9 27  1  0
  9 28  1  0
  8 25  1  0
 10 29  1  0
 10 30  1  0
 10 31  1  0
  7 24  1  1
 11 32  1  0
 11 33  1  0
 12 34  1  0
 12 35  1  0
 14 36  1  0
 14 37  1  0
 14 38  1  0
  5 22  1  6
  4 20  1  0
  4 21  1  0
  3 19  1  0
  1 16  1  0
  1 17  1  0
  1 18  1  0
 15 39  1  1
  6 23  1  1
M  END


  Mrv1652309272007322D          

 15 17  0  0  0  0            999 V2000
   -2.5588    1.2580    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -2.6870    0.4484    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -2.0499   -0.0674    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.2846    0.2262    0.0000 C   0  0  1  0  0  0  0  0  0  0  0  0
   -1.1564    1.0359    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -1.7935    1.5518    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.1094    0.4879    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.9095    0.2351    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.9992   -0.0958    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -3.2263    0.0770    0.0000 C   0  0  2  0  0  0  0  0  0  0  0  0
   -3.2000    1.7773    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -4.2237    1.3049    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.6434   -0.2929    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
    0.1268    0.0028    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
   -0.7725   -1.1078    0.0000 C   0  0  0  0  0  0  0  0  0  0  0  0
  1  2  1  6  0  0  0
  2  3  1  0  0  0  0
  3  4  1  0  0  0  0
  4  5  1  0  0  0  0
  5  6  1  0  0  0  0
  1  6  1  0  0  0  0
  7  8  2  0  0  0  0
  8  9  1  0  0  0  0
  9 10  1  0  0  0  0
  3 10  1  1  0  0  0
  1 11  1  0  0  0  0
  7 12  1  0  0  0  0
  4 13  1  1  0  0  0
 13 14  1  0  0  0  0
 13 15  1  0  0  0  0
  2  7  1  1  0  0  0
 10  1  1  6  0  0  0
M  END
> <DATABASE_ID>
NP0204262

> <DATABASE_NAME>
NP-MRD

> <SMILES>
CC(C)[C@@H]1CC[C@]2(C)[C@H]3CC=C(C)[C@@H]2[C@@H]13

> <INCHI_IDENTIFIER>
InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11-,12-,13-,14+,15+/m0/s1

> <INCHI_KEY>
VLXDPFLIRFYIME-BTFPBAQTSA-N

> <FORMULA>
C15H24

> <MOLECULAR_WEIGHT>
204.357

> <EXACT_MASS>
204.187800773

> <JCHEM_ACCEPTOR_COUNT>
0

> <JCHEM_ATOM_COUNT>
39

> <JCHEM_AVERAGE_POLARIZABILITY>
26.171244674258247

> <JCHEM_BIOAVAILABILITY>
1

> <JCHEM_DONOR_COUNT>
0

> <JCHEM_FORMAL_CHARGE>
0

> <JCHEM_GHOSE_FILTER>
1

> <JCHEM_IUPAC>
(1R,2S,6S,7S,8S)-1,3-dimethyl-8-(propan-2-yl)tricyclo[4.4.0.0^{2,7}]dec-3-ene

> <ALOGPS_LOGP>
3.75

> <JCHEM_LOGP>
4.0881301626666655

> <ALOGPS_LOGS>
-5.05

> <JCHEM_MDDR_LIKE_RULE>
0

> <JCHEM_NUMBER_OF_RINGS>
3

> <JCHEM_PHYSIOLOGICAL_CHARGE>
0

> <JCHEM_POLAR_SURFACE_AREA>
0.0

> <JCHEM_REFRACTIVITY>
65.7679

> <JCHEM_ROTATABLE_BOND_COUNT>
1

> <JCHEM_RULE_OF_FIVE>
1

> <ALOGPS_SOLUBILITY>
1.81e-03 g/l

> <JCHEM_TRADITIONAL_IUPAC>
(1R,2S,6S,7S,8S)-8-isopropyl-1,3-dimethyltricyclo[4.4.0.0^{2,7}]dec-3-ene

> <JCHEM_VEBER_RULE>
1

$$$$

HEADER    PROTEIN                                 27-SEP-20   NONE
TITLE     NULL                                                        
COMPND    NULL                                                        
SOURCE    NULL                                                        
KEYWDS    NULL                                                        
EXPDTA    NULL                                                        
AUTHOR    Marvin                                                      
REVDAT   1   27-SEP-20         0                                  
HETATM    1  C   UNK     0      -4.776   2.348   0.000  0.00  0.00           C+0
HETATM    2  C   UNK     0      -5.016   0.837   0.000  0.00  0.00           C+0
HETATM    3  C   UNK     0      -3.827  -0.126   0.000  0.00  0.00           C+0
HETATM    4  C   UNK     0      -2.398   0.422   0.000  0.00  0.00           C+0
HETATM    5  C   UNK     0      -2.159   1.934   0.000  0.00  0.00           C+0
HETATM    6  C   UNK     0      -3.348   2.897   0.000  0.00  0.00           C+0
HETATM    7  C   UNK     0      -7.671   0.911   0.000  0.00  0.00           C+0
HETATM    8  C   UNK     0      -9.164   0.439   0.000  0.00  0.00           C+0
HETATM    9  C   UNK     0      -7.465  -0.179   0.000  0.00  0.00           C+0
HETATM   10  C   UNK     0      -6.022   0.144   0.000  0.00  0.00           C+0
HETATM   11  C   UNK     0      -5.973   3.318   0.000  0.00  0.00           C+0
HETATM   12  C   UNK     0      -7.884   2.436   0.000  0.00  0.00           C+0
HETATM   13  C   UNK     0      -1.201  -0.547   0.000  0.00  0.00           C+0
HETATM   14  C   UNK     0       0.237   0.005   0.000  0.00  0.00           C+0
HETATM   15  C   UNK     0      -1.442  -2.068   0.000  0.00  0.00           C+0
CONECT    1    2    6   11   10                                             
CONECT    2    1    3    7                                                  
CONECT    3    2    4   10                                                  
CONECT    4    3    5   13                                                  
CONECT    5    4    6                                                       
CONECT    6    5    1                                                       
CONECT    7    8   12    2                                                  
CONECT    8    7    9                                                       
CONECT    9    8   10                                                       
CONECT   10    9    3    1                                                  
CONECT   11    1                                                            
CONECT   12    7                                                            
CONECT   13    4   14   15                                                  
CONECT   14   13                                                            
CONECT   15   13                                                            
MASTER        0    0    0    0    0    0    0    0   15    0   34    0
END

View in JSmol

Synonyms

Value	Source
(-)-Copaene	HMDB
(-)-alpha-Copaene	HMDB
(-)-α-Copaene	HMDB
(1R,2S,6S,7S,8S)-(-)-8-Isopropyl-1,3-dimethyltricyclo[4.4.0.02,7]dec-3-ene	HMDB
(1R,2S,6S,7S,8S)-1,3-Dimethyl-8-(1-methylethyl)tricyclo[4.4.0.02,7]dec-3-ene	HMDB
Aglaiene	HMDB
Copaene	HMDB
alpha-Copaene	HMDB
α-Copaene	HMDB
alpha-Copanene	PhytoBank
α-Copanene	PhytoBank

Chemical Formula

C₁₅H₂₄

Average Mass

204.3570 Da

Monoisotopic Mass

204.18780 Da

IUPAC Name

(1R,2S,6S,7S,8S)-1,3-dimethyl-8-(propan-2-yl)tricyclo[4.4.0.0^{2,7}]dec-3-ene

Traditional Name

(1R,2S,6S,7S,8S)-8-isopropyl-1,3-dimethyltricyclo[4.4.0.0^{2,7}]dec-3-ene

CAS Registry Number

Not Available

SMILES

CC(C)[C@@H]1CC[C@]2(C)[C@H]3CC=C(C)[C@@H]2[C@@H]13

InChI Identifier

InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11-,12-,13-,14+,15+/m0/s1

InChI Key

VLXDPFLIRFYIME-BTFPBAQTSA-N

Experimental Spectra

Not Available

Predicted Spectra

Spectrum Type	Description	Depositor ID	Depositor Organization	Depositor	Deposition Date	View
1D NMR	¹³C NMR Spectrum (1D, 25 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 100 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 252 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 1000 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 50 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 200 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 75 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 300 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 101 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 400 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 126 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 500 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 151 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 600 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 176 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 700 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 201 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 800 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹³C NMR Spectrum (1D, 226 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum
1D NMR	¹H NMR Spectrum (1D, 900 MHz, H₂O, predicted)	Wishart Lab	Wishart Lab	David Wishart	2021-06-20	View Spectrum

Chemical Shift Submissions

Not Available

Species

Species of Origin

Species Name	Source	Reference
Pinus heldreichii	LOTUS Database	35616633
Pinus pinaster	LOTUS Database	35616633
Pinus sylvestris	LOTUS Database	35616633
Piper aduncum	LOTUS Database	35616633
Valeriana officinalis	LOTUS Database	35616633

Chemical Taxonomy

Description

Belongs to the class of organic compounds known as sesquiterpenoids. These are terpenes with three consecutive isoprene units.

Kingdom

Organic compounds

Super Class

Lipids and lipid-like molecules

Class

Prenol lipids

Sub Class

Sesquiterpenoids

Direct Parent

Sesquiterpenoids

Alternative Parents

Substituents

Copaane sesquiterpenoid
Sesquiterpenoid
Branched unsaturated hydrocarbon
Polycyclic hydrocarbon
Cyclic olefin
Unsaturated aliphatic hydrocarbon
Unsaturated hydrocarbon
Olefin
Hydrocarbon
Aliphatic homopolycyclic compound

Molecular Framework

Aliphatic homopolycyclic compounds

External Descriptors

Not Available

Physical Properties

State

Not Available

Experimental Properties

Property	Value	Reference
Melting Point	Not Available	Not Available
Boiling Point	Not Available	Not Available
Water Solubility	Not Available	Not Available
LogP	Not Available	Not Available

Predicted Properties

Property	Value	Source
logP	3.75	ALOGPS
logP	4.09	ChemAxon
logS	-5	ALOGPS
Physiological Charge	0	ChemAxon
Hydrogen Acceptor Count	0	ChemAxon
Hydrogen Donor Count	0	ChemAxon
Polar Surface Area	0 Å²	ChemAxon
Rotatable Bond Count	1	ChemAxon
Refractivity	65.77 m³·mol⁻¹	ChemAxon
Polarizability	26.17 Å³	ChemAxon
Number of Rings	3	ChemAxon
Bioavailability	Yes	ChemAxon
Rule of Five	Yes	ChemAxon
Ghose Filter	Yes	ChemAxon
Veber's Rule	Yes	ChemAxon
MDDR-like Rule	No	ChemAxon

External Links

HMDB ID

HMDB0061851

DrugBank ID

Not Available

Phenol Explorer Compound ID

Not Available

FoodDB ID

KNApSAcK ID

Chemspider ID

KEGG Compound ID

BioCyc ID

Not Available

BiGG ID

Not Available

Wikipedia Link

Copaene

METLIN ID

Not Available

PubChem Compound

12303902

PDB ID

Not Available

ChEBI ID

Not Available

Good Scents ID

Not Available

References

General References

Landoulsi A, Hennebelle T, Bero J, Riviere C, Sahpaz S, Quetin-Leclercq J, Neut C, Benhamida J, Roumy V: Antimicrobial and Light-Enhanced Antimicrobial Activities, Cytotoxicity and Chemical Variability of All Tunisian Eryngium Species. Chem Biodivers. 2020 Apr;17(4):e1900543. doi: 10.1002/cbdv.201900543. Epub 2020 Mar 23. [PubMed:32103562 ]
Belleggia L, Milanovic V, Ferrocino I, Cocolin L, Haouet MN, Scuota S, Maoloni A, Garofalo C, Cardinali F, Aquilanti L, Mozzon M, Foligni R, Pasquini M, Trombetta MF, Clementi F, Osimani A: Is there any still undisclosed biodiversity in Ciauscolo salami? A new glance into the microbiota of an artisan production as revealed by high-throughput sequencing. Meat Sci. 2020 Jul;165:108128. doi: 10.1016/j.meatsci.2020.108128. Epub 2020 Mar 20. [PubMed:32220814 ]
Ma XK, Li XF, Zhang JY, Lei J, Li WW, Wang G: Analysis of the Volatile Components in Selaginella doederleinii by Headspace Solid Phase Microextraction-Gas Chromatography-Mass Spectrometry. Molecules. 2019 Dec 27;25(1). pii: molecules25010115. doi: 10.3390/molecules25010115. [PubMed:31892247 ]
Ajiboye BO, Ojo OA, Fatoba B, Afolabi OB, Olayide I, Okesola MA, Oyinloye BE: In vitro antioxidant and enzyme inhibitory properties of the n-butanol fraction of Senna podocarpa (Guill. and Perr.) leaf. J Basic Clin Physiol Pharmacol. 2019 Dec 25;31(1). pii: jbcpp-2019-0123. doi: 10.1515/jbcpp-2019-0123. [PubMed:31874099 ]
Bi S, Sun S, Lao F, Liao X, Wu J: Gas chromatography-mass spectrometry combined with multivariate data analysis as a tool for differentiating between processed orange juice samples on the basis of their volatile markers. Food Chem. 2020 May 1;311:125913. doi: 10.1016/j.foodchem.2019.125913. Epub 2019 Nov 30. [PubMed:31855770 ]
LOTUS database [Link]

Showing NP-Card for copaene (NP0204262)

MOL for NP0204262 (copaene)

3D MOL for NP0204262 (copaene)

3D SDF for NP0204262 (copaene)

3D-SDF for NP0204262 (copaene)

PDB for NP0204262 (copaene)

3D PDB for NP0204262 (copaene)

SMILES for NP0204262 (copaene)

INCHI for NP0204262 (copaene)

Structure for NP0204262 (copaene)

3D Structure for NP0204262 (copaene)